feat: new amp genes for hg38

genomic-medicine-sweden · Apr 19, 2024 · c6f7b5e · c6f7b5e
1 parent c8264b2
commit c6f7b5e
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/config/config.data.hg38.yaml b/config/config.data.hg38.yaml
@@ -30,7 +30,7 @@ arriba_draw_fusion:
   protein_domains: "{{PROJECT_REF_DATA}}/ref_data/arriba_v2.3.0/protein_domains_hg38_GRCh38_v2.3.0.gff3"
 
 annotate_cnv:
-  cnv_amp_genes: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_amp_genes_hg38.bed"
+  cnv_amp_genes: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_amp_genes_hg38_230307.bed"
   cnv_loh_genes_validated: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_loh_uppsala_genes_hg38.bed"
   cnv_loh_genes_all: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_loh_genes_hg38.bed"
 
@@ -57,7 +57,7 @@ call_small_cnv_deletions:
   regions_file: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_deletion_genes_hg38.tsv"
 
 call_small_cnv_amplifications:
-  regions_file: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_amplification_genes_hg38.tsv"
+  regions_file: "{{PROJECT_DESIGN_DATA}}/GMS560/cnv/cnv_amplification_genes_hg38_240307.tsv"
 
 cnvkit_batch:
   normal_reference: "{{PROJECT_PON_DATA}}/GMS560/PoN/cnvkit_nextseq_noUmea_27_hg38.cnn"